combineTestResults: Combine count Table and statistics table

In ManchesterBioinference/Motif2Site: Detect binding sites from motifs and ChIP-seq experiments, and compare binding sites across conditions

Description

Combine count table and pvalue FE statistics into one file for motifs and regions seperately.

Usage

combineTestResults(
  motifFile,
  acceptedMotifsOutputFile,
  acceptedRegionsOutputFile,
  countTableFile,
  testTableFile,
  fdrCutoff,
  windowSize
)

Arguments

motifFile	File contains motifs
acceptedMotifsOutputFile	File name of accepted motif table inforation
acceptedRegionsOutputFile	File name of accepteted region information
countTableFile	Table of count values file name
testTableFile	negative binomial test table file name
fdrCutoff	Pvalue cut-off related to the used FDR
windowSize	Window size around binding site. The total region would be 2*windowSize+1

Value

The average binding intensity for each ChIP-seq

ManchesterBioinference/Motif2Site documentation built on Feb. 13, 2022, 2:03 a.m.